[Bioc-devel] ExpressionSet for qRT-PCR

James W. MacDonald jmacdon at med.umich.edu
Sat Jan 13 22:27:15 CET 2007

Vincent Carey 525-2265 wrote:
> while this topic is being aired, can i ask about design
> considerations?  i find that people using RT-PCR are
> prone to putting their replicates next to each other on the
> plates; if they have multiple plates they may not distribute
> samples from different conditions systematically.
> perhaps the platforms you are describing already
> address this?

The SuperArrays are a commercial product, so all plates of the same type 
will have the genes being interrogated arranged consistently from one 
plate to another. The design is based on a single sample per plate 
(i.e., one sample, multiple genes) rather than the convention with most 
PCR runs of multiple samples, single (or very few) genes.

James W. MacDonald
University of Michigan
Affymetrix and cDNA Microarray Core
1500 E Medical Center Drive
Ann Arbor MI 48109

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